GREMLIN Database
Q980R4 - Transcription termination factor nusA homolog, putative (NusA)
UniProt: Q980R4 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 124 (103)
Sequences: 1829 (1374)
Seq/√Len: 135.4

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
66_M74_V3.4341.00
40_K44_I3.3131.00
98_I102_G3.1381.00
107_R111_I3.0721.00
31_I35_G2.8491.00
70_R74_V2.6421.00
72_R75_K2.4121.00
76_V79_T2.3111.00
27_M52_V2.2641.00
104_N107_R2.0931.00
67_S70_R1.9871.00
64_N75_K1.9651.00
69_A73_S1.8981.00
62_V66_M1.8071.00
39_K42_K1.7351.00
70_R73_S1.7001.00
71_V74_V1.6771.00
70_R75_K1.6361.00
47_K70_R1.5991.00
46_G70_R1.5531.00
68_P72_R1.5521.00
33_K36_I1.5421.00
64_N74_V1.5181.00
91_P94_K1.4451.00
41_L45_I1.4121.00
107_R110_L1.4081.00
65_L70_R1.3861.00
100_K103_R1.3641.00
61_L66_M1.3321.00
65_L68_P1.3261.00
27_M60_E1.3191.00
18_I75_K1.2971.00
19_I61_L1.2761.00
41_L49_I1.2661.00
63_K66_M1.2371.00
62_V65_L1.2181.00
68_P73_S1.2061.00
61_L65_L1.1981.00
98_I104_N1.1770.99
99_G102_G1.1730.99
98_I105_V1.1710.99
78_N88_N1.1660.99
63_K67_S1.1460.99
18_I71_V1.1330.99
61_L69_A1.1220.99
67_S73_S1.1200.99
32_G35_G1.1060.99
109_K115_Y1.0980.99
95_G102_G1.0900.99
25_K81_S1.0610.99
66_M69_A1.0460.99
43_K113_K1.0320.99
91_P110_L0.9950.98
64_N68_P0.9710.98
16_N42_K0.9690.98
85_V88_N0.9690.98
46_G85_V0.9560.98
54_Y107_R0.9540.98
60_E64_N0.9450.97
51_L62_V0.9330.97
64_N71_V0.9240.97
27_M41_L0.9140.97
38_V42_K0.9090.97
105_V109_K0.8930.96
66_M71_V0.8690.96
87_I112_L0.8330.95
68_P75_K0.8280.95
52_V94_K0.8030.94
92_Q96_L0.7990.93
77_V81_S0.7950.93
22_V96_L0.7910.93
104_N109_K0.7840.93
14_E91_P0.7780.93
78_N82_K0.7780.93
20_F52_V0.7770.92
62_V68_P0.7730.92
99_G105_V0.7730.92
34_S39_K0.7630.92
14_E68_P0.7610.92
89_I93_D0.7610.92
71_V75_K0.7530.91
89_I94_K0.7510.91
66_M70_R0.7480.91
107_R114_R0.7470.91
66_M73_S0.7450.91
39_K43_K0.7420.91
24_S58_L0.7380.90
30_A46_G0.7330.90
24_S29_V0.7330.90
23_D26_D0.7250.90
43_K79_T0.7250.90
100_K104_N0.7220.89
19_I63_K0.7220.89
27_M50_E0.7190.89
36_I40_K0.7180.89
30_A41_L0.7110.89
102_G106_A0.7080.89
34_S54_Y0.7040.88
47_K102_G0.6770.86
20_F50_E0.6720.86
62_V74_V0.6630.85
108_A116_M0.6580.85
109_K112_L0.6460.84
61_L68_P0.6460.84
41_L51_L0.6450.83
24_S85_V0.6420.83
21_L86_Y0.6420.83
108_A111_I0.6410.83
25_K80_S0.6390.83
51_L59_E0.6330.82
30_A96_L0.6280.82
40_K62_V0.6220.81
37_N40_K0.6200.81
90_D93_D0.6190.81
20_F26_D0.5970.79
24_S59_E0.5930.78
17_R20_F0.5930.78
18_I29_V0.5870.77
27_M51_L0.5790.76
56_D59_E0.5720.76
32_G99_G0.5670.75
44_I85_V0.5650.75
96_L104_N0.5600.74
36_I101_N0.5590.74
99_G104_N0.5570.74
42_K52_V0.5550.73
51_L93_D0.5500.73
109_K116_M0.5440.72
97_A100_K0.5440.72
14_E48_D0.5430.72
44_I71_V0.5420.72
22_V52_V0.5410.71
108_A114_R0.5360.71
81_S94_K0.5360.71
23_D48_D0.5340.70
57_N110_L0.5280.70
104_N108_A0.5280.70
72_R83_K0.5270.69
64_N69_A0.5270.69
56_D92_Q0.5250.69
42_K50_E0.5240.69
43_K89_I0.5190.68
30_A38_V0.5190.68
38_V93_D0.5180.68
63_K74_V0.5160.68
26_D29_V0.5120.67
87_I93_D0.5110.67
98_I101_N0.5100.67
17_R69_A0.5090.67
19_I38_V0.5050.66
67_S101_N0.5040.66
59_E85_V0.5020.66
110_L115_Y0.5020.66
65_L73_S0.5000.65
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3krmA 3 0.8871 99.7 0.361 Contact Map
2anrA 1 0.9032 99.7 0.374 Contact Map
2jzxA 1 0.9032 99.7 0.376 Contact Map
2jvzA 1 0.8871 99.6 0.382 Contact Map
3n89A 2 0.9516 99.6 0.384 Contact Map
1j4wA 1 0.879 99.6 0.389 Contact Map
2cxcA 1 1 99.6 0.413 Contact Map
2qndA 2 0.8548 99.5 0.429 Contact Map
1tuaA 1 0.9032 99.5 0.458 Contact Map
2e3uA 1 0.8871 99.3 0.497 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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